Sequence Cleanup & Conversion
CLEANER
CLEANER (cellbiol.com) offers a useful alternative by stripping off non-sequence material (e.g. numbers) from nucleic acid and protein sequence. N.B. Particularly useful if you only want part of the DNA sequence from GenBank. Other sites offering a program to convert sequence format are Readseq (D.G. Gilbert, University of Indiana, U.S.A.). See also CONVERT.
Sequence Cleanup or Formatting
Sequence Cleanup or Formatting offers: 60 characters per line, UPPER CASE, lower case, GenBank, and skyline.
SeqScrub
SeqScrub
is a web application that cleans up FASTA file headers and appends
information from external databases.
(Reference: Foley G et al. (2019) Biotechniques.
67(2): 50-54).
Nucleic Acid Sequence Massager
Nucleic Acid Sequence Massager (formerly at Allotron Biosensor Corporation) is my favourite because, in addition to removing spurious material (numbers, breaks, HTML, spaces), it changes the format (upper to low case, complement, reverse, RNA to DNA, and triplets). It is also available here.
DNA Sequence Reverse and Complement
DNA Sequence Reverse and Complement (cellbiol.com) lets you reverse a DNA sequence, complement a DNA sequence, or reverse and complement a DNA sequence. It also removes numbers, spaces, tabs, slash, or non-GATC characters, and allows conversion to upper or lower case.
Secret encoding tool
Secret encoding tool encodes secret messages in DNA sequence. Alternatively use DNA-0-gram Generator, which allows one to send a DNA-o-gram or decode a DNA-o-gram.
Also see
Updated: February, 2026